tabulFlora: Build report-ready table with all known plant species...

In pecard/tabuleia: Collect biodiversity from different sources for a region of interest.

Build report-ready table with all known plant species occurences for a region of interest (roi).

Description

The tabulAve function will create a reference table (Excel file) considering all plant species occurring in a Roi, joining all relevant information (taxonomic, conservation, occurrence status and legal framework).

Usage

tabulFlora(
  utm_ae = utm_ae,
  utm_q = utm_contig,
  fielddata = NULL,
  biblio = "all"
)

Arguments

utm_ae	character vector of utm grid cells touching roi.
utm_q	character vector of utm grid cells around roi
fielddata	a dataframe with data obtained for the roi. Tipically a table with species and utm 10x10 code reference.
biblio	character vector. Databases to get data from. One of c('all', 'floraon', 'pterid').
ae	any spatial (sp, sf, spatialdataframe) or coordinates vector indicating a region of interest.

Details

ensure that field datasheet follow the standardized formatting (Flora_TabulEIA_Template.xlsx).

Value

a table with a complete and pre-formatted table, for use in reports.

Author(s)

Paulo E. Cardoso

Examples

## Not run: 
# read roi from shapefile
library(tidyverse)
ae <- sf::read_sf(here::here("sig", "ae_buffer250m.shp"),
  stringsAsFactors = F
) %>%
  st_set_crs(3763)
# Cast multipolygon geometry to single parts
aeu <- st_cast(ae, "POLYGON")
# Add an UID to each
aeu$id <- c(1:2)
# get UTM codes for your roi
utm_all <- utm_id(grid = utm10k, roi = aeu %>% filter(id == 2), buff = NULL, contiguity = "queen")
# tabulate species occurence and status in the area
tflora <- tabulEIA::tabulFlora(
  fielddata = NULL, utm_ae = utm_ae, utm_q = utm_contig,
  biblio = "all"
)
# export to csv
write_excel_csv(tflora, path = here::here("output", "tabela_avifauna_agolada.csv"))

## End(Not run)

pecard/tabuleia documentation built on June 16, 2022, 3:32 a.m.